Contacts of the helix formed by residues 1203 - 1221 (chain B) in PDB entry 2WIN
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with LYS1203 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1112B ARG* 5.8 4.9 - - - +
1202B GLY* 1.3 75.3 - - - -
1204B GLN* 1.3 62.6 + - - +
1205B LEU* 3.4 11.2 + - + +
1206B TYR* 3.3 55.1 + - + +
1207B ASN* 3.4 19.3 + - - +
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Residues in contact with GLN1204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1202B GLY 4.9 4.3 - - - +
1203B LYS* 1.3 71.6 - - - +
1205B LEU* 1.3 63.7 + - + +
1206B TYR 3.2 2.9 - - - -
1207B ASN* 3.1 14.6 + - + +
1208B VAL* 3.0 35.9 + - + +
1237B GLN* 4.8 10.7 + - - -
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Residues in contact with LEU1205 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1203B LYS* 3.4 8.4 - - + +
1204B GLN* 1.3 81.8 - - + +
1206B TYR* 1.3 69.1 + - + +
1208B VAL* 3.7 6.6 + - + +
1209B GLU* 3.2 23.0 + - - +
1239B TYR* 3.5 39.0 - - + +
1243B GLY 6.1 0.2 - - - -
1244B TYR 4.4 10.1 - - - +
1245B GLY 4.0 20.9 - - - +
1246B SER* 4.7 8.3 - - - -
1249B ALA* 3.9 16.5 - - + +
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Residues in contact with TYR1206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1106B GLU* 6.0 1.2 - - - -
1109B GLY* 3.0 32.3 + - - -
1110B GLY* 3.4 24.2 - - - -
1112B ARG* 4.1 23.0 + - + +
1113B ASN* 6.1 3.4 - - + -
1163B ARG* 6.0 2.7 - - - +
1165B TYR* 3.5 11.9 - - + -
1203B LYS* 3.3 61.1 + - + +
1204B GLN 3.2 0.6 - - - -
1205B LEU* 1.3 80.8 - - + +
1207B ASN* 1.3 65.1 + - - +
1209B GLU* 3.5 5.7 + - - +
1210B ALA* 3.0 28.4 + - - +
1245B GLY 6.0 1.8 - - - -
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Residues in contact with ASN1207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1198B TRP 3.7 6.4 - - - +
1199B GLU* 3.3 31.5 + - + +
1200B ASP* 3.1 40.1 + - - +
1202B GLY 5.0 1.6 + - - -
1203B LYS 3.4 14.9 + - - +
1204B GLN* 3.1 14.8 + - - +
1206B TYR* 1.3 79.5 - - - +
1208B VAL* 1.3 59.8 + - - +
1210B ALA* 3.3 2.4 + - - +
1211B THR* 2.8 34.7 + - - -
1233B TRP* 4.8 11.2 - - + -
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Residues in contact with VAL1208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1204B GLN* 3.0 21.8 + - + +
1205B LEU* 3.9 10.3 - - + +
1206B TYR 3.4 0.2 - - - -
1207B ASN* 1.3 75.7 - - - +
1209B GLU* 1.3 60.6 + - - +
1211B THR* 3.5 6.2 + - - -
1212B SER* 2.8 27.4 + - - -
1233B TRP* 4.6 15.5 - - + -
1234B LEU* 4.6 6.9 - - + +
1237B GLN* 5.3 10.1 - - + +
1239B TYR* 4.4 26.2 - - + -
1249B ALA* 4.4 6.3 - - + +
1253B VAL* 3.9 30.7 - - + -
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Residues in contact with GLU1209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1108B ILE 4.3 0.9 - - - +
1109B GLY* 3.6 2.8 - - - -
1110B GLY 3.3 18.9 + - - -
1111B LEU* 4.6 1.4 - - - +
1165B TYR* 2.8 27.0 + - + -
1205B LEU 3.2 15.9 + - - +
1206B TYR* 3.7 5.9 - - - +
1207B ASN 3.2 0.4 - - - -
1208B VAL* 1.3 78.4 - - - +
1210B ALA* 1.3 65.1 + - - +
1212B SER* 3.1 15.2 + - - -
1213B TYR* 3.1 47.8 + - + -
1248B GLN* 3.3 41.0 - - - +
1249B ALA* 4.5 11.9 + - - +
1252B MET* 4.4 1.6 - - + -
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Residues in contact with ALA1210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1165B TYR* 3.6 35.0 - - + -
1168B ALA* 3.2 16.6 - - + +
1169B ILE 5.8 0.2 - - - +
1198B TRP* 3.4 25.6 - - + +
1206B TYR 3.0 18.5 + - - +
1207B ASN* 3.6 1.6 - - - +
1209B GLU* 1.3 76.7 - - - +
1211B THR* 1.3 61.6 - - - +
1213B TYR* 3.5 3.9 + - - +
1214B ALA* 3.1 17.8 + - - +
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Residues in contact with THR1211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1196B ASN 4.4 4.9 - - - +
1197B ARG* 4.4 4.7 - - - -
1198B TRP* 3.4 20.9 + - + -
1207B ASN 2.8 18.3 + - - -
1208B VAL 3.8 4.7 - - - -
1210B ALA* 1.3 73.9 - - - +
1212B SER* 1.3 59.3 + - - +
1214B ALA* 3.3 6.4 + - - +
1215B LEU* 2.9 27.5 + - - +
1230B VAL* 3.7 22.4 - - + +
1233B TRP* 3.5 19.9 - - + -
1234B LEU* 3.6 26.0 - - + -
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Residues in contact with SER1212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1208B VAL 2.8 19.3 + - - -
1209B GLU* 3.1 11.0 + - - -
1211B THR* 1.3 75.1 - - - +
1213B TYR* 1.3 64.2 + - - +
1215B LEU* 3.2 5.2 + - - +
1216B LEU* 3.1 28.0 + - - +
1234B LEU* 5.0 5.3 - - - +
1252B MET* 3.4 30.1 - - - -
1253B VAL* 3.2 26.2 + - - +
1256B ALA* 3.7 8.0 - - - +
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Residues in contact with TYR1213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1062B LYS* 4.3 4.4 - - - -
1124B PHE* 3.7 25.5 - + - -
1127B ILE* 3.5 33.9 - - + -
1165B TYR* 4.7 4.7 - + - -
1168B ALA* 4.0 15.9 - - + +
1169B ILE* 4.1 25.8 - - + +
1172B TYR* 3.4 19.5 - + + +
1209B GLU* 3.1 51.1 + - + -
1210B ALA* 3.9 7.6 - - - +
1212B SER* 1.3 77.8 - - - +
1214B ALA* 1.3 63.2 + - - +
1216B LEU* 3.5 6.9 + - - +
1217B ALA* 3.1 17.7 + - - +
1248B GLN* 3.8 3.3 + - - -
1252B MET* 3.5 42.9 - - + +
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Residues in contact with ALA1214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1168B ALA* 4.1 3.5 - - + +
1188B PHE* 3.5 23.1 - - + -
1198B TRP* 3.5 40.6 - - + -
1210B ALA 3.1 16.4 + - - +
1211B THR 3.5 2.9 - - - +
1212B SER 3.2 0.2 - - - -
1213B TYR* 1.3 75.1 - - - +
1215B LEU* 1.3 64.2 + - - +
1217B ALA* 3.3 3.5 + - - +
1218B LEU* 3.1 28.9 + - - +
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Residues in contact with LEU1215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1211B THR 2.9 14.7 + - - +
1212B SER* 3.2 8.9 + - - +
1214B ALA* 1.3 77.6 - - - +
1216B LEU* 1.3 62.2 + - - +
1218B LEU* 3.2 9.1 + - + +
1219B LEU* 3.0 38.4 + - + +
1227B VAL* 3.7 33.0 - - + -
1230B VAL* 4.2 16.3 - - + +
1231B VAL* 3.8 16.4 - - + -
1234B LEU* 3.8 22.7 - - + -
1256B ALA* 3.6 32.1 - - + +
1257B LEU* 4.5 3.4 - - + -
1260B TYR* 4.8 1.6 - - + -
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Residues in contact with LEU1216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1172B TYR* 3.4 38.5 - - + +
1212B SER 3.1 12.8 + - - +
1213B TYR* 3.8 5.8 - - - +
1214B ALA 3.4 0.2 - - - -
1215B LEU* 1.3 78.0 - - - +
1217B ALA* 1.3 55.8 + - - +
1219B LEU* 3.3 7.1 + - + +
1220B GLN* 3.0 29.6 + - - +
1252B MET* 3.7 30.1 - - + -
1255B GLN* 3.8 21.1 - - + +
1256B ALA* 3.6 26.7 - - + -
1259B GLN* 3.8 27.4 - - + -
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Residues in contact with ALA1217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1171B GLY 4.1 4.9 - - - +
1172B TYR* 3.4 30.5 - - - +
1175B ALA* 4.2 5.6 - - + -
1180B LEU* 5.1 2.5 - - + -
1188B PHE* 3.9 18.2 - - + -
1213B TYR 3.1 13.7 + - - +
1214B ALA 3.4 9.4 - - - +
1215B LEU 3.1 0.2 - - - -
1216B LEU* 1.3 74.3 - - - +
1218B LEU* 1.3 66.0 + - - +
1220B GLN* 3.2 2.6 + - - +
1221B LEU* 3.0 29.8 + - - +
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Residues in contact with LEU1218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1185B LEU* 6.5 0.2 - - + -
1188B PHE* 3.6 22.9 - - + -
1189B LEU* 3.9 19.7 - - + -
1198B TRP* 4.3 5.6 - - + -
1214B ALA 3.1 15.1 + - - +
1215B LEU* 3.2 10.7 + - + +
1217B ALA* 1.3 78.0 - - - +
1219B LEU* 1.3 57.5 + - - +
1221B LEU* 3.4 8.5 + - + +
1222B LYS 2.9 21.8 + - - -
1223B ASP* 3.0 31.1 + - + +
1226B PHE* 3.8 35.2 - - + +
1227B VAL* 4.0 16.4 - - + -
1230B VAL* 4.1 13.5 - - + -
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Residues in contact with LEU1219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1215B LEU* 3.0 37.2 + - + +
1216B LEU* 3.7 8.7 - - - +
1218B LEU* 1.3 76.3 - - - +
1220B GLN* 1.3 62.7 + - - +
1222B LYS* 3.5 16.6 + - - +
1224B PHE* 4.6 14.4 - - + -
1227B VAL* 4.0 30.7 - - + -
1256B ALA 4.0 15.5 - - - +
1259B GLN* 4.1 12.6 - - + -
1260B TYR* 4.0 11.7 - - + +
1263B ASP* 3.1 41.4 - - - +
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Residues in contact with GLN1220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1172B TYR* 4.6 7.5 + - + -
1175B ALA* 3.2 31.9 + - + +
1176B GLN* 3.6 32.4 + - + +
1216B LEU 3.0 17.3 + - - +
1217B ALA* 3.6 5.6 - - - +
1219B LEU* 1.3 79.5 - - - +
1221B LEU* 1.3 60.1 + - - +
1222B LYS* 3.2 18.7 + - - +
1259B GLN* 5.8 1.7 + - - -
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Residues in contact with LEU1221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1175B ALA* 3.8 28.3 - - + +
1178B GLY* 4.9 9.2 - - - -
1180B LEU* 3.7 37.5 - - + +
1181B LYS* 6.5 0.4 - - + -
1185B LEU* 3.8 22.2 - - + -
1188B PHE* 5.9 1.3 - - + -
1217B ALA* 3.0 21.2 + - + +
1218B LEU* 4.1 10.3 - - + +
1220B GLN* 1.3 76.9 - - - +
1222B LYS* 1.3 72.7 + - - +
1223B ASP* 4.5 6.5 - - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il